Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
YTHDC1

Cell type

Cell type Class
Uterus
Cell type
HeLa
Primary Tissue
Cervix
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
HeLa
cell type
HeLa (cervix adenocarcinoma from American Type Culture Collection, VA, USA)
treatment
None
passages
13-15
chip antibody
A305-096A

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were then crosslinked, collected and lysed according to the "ChIP-IT High Sensitivity" kit (Active Motif). Sheared chromatin was obtained using a probe sonicator and used for ChIP experiments using RNAPII and YTHDC1 antibodies. ChIP-seq librairies were constructed using the Next Gen DNA Library Kit (Active Motif 53216 and 53264).

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
24931667
Reads aligned (%)
96.0
Duplicates removed (%)
4.0
Number of peaks
959 (qval < 1E-05)

hg19

Number of total reads
24931667
Reads aligned (%)
95.0
Duplicates removed (%)
5.3
Number of peaks
772 (qval < 1E-05)

Base call quality data from DBCLS SRA